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Nabi A, Banoo A, Rasool RS, Dar MS, Mubashir SS, Masoodi KZ, Shah MD, Khan AA, Khan I, Padder BA. Optimizing the Agrobacterium tumifaciens mediated transformation conditions in Colletotrichum lindemuthianum: A step forward to unravel the functions of pathogenicity arsenals. Lett Appl Microbiol 2021; 75:293-307. [PMID: 34398478 DOI: 10.1111/lam.13552] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2020] [Revised: 08/04/2021] [Accepted: 08/05/2021] [Indexed: 11/28/2022]
Abstract
Colletotrichum lindemuthianum is a hemibiotrophic fungal pathogen that causes bean anthracnose and it is rated among the top 10 important diseases infecting beans. Currently our knowledge on molecular mechanisms underlying C. lindemuthianum pathogenesis is limited. About five pathogenicity genes have been identified in C. lindemuthianum using Restricted Enzyme Mediated Integration (REMI) and the transformation using Agroinfection has not been optimized. In this study, a series of experiments were conducted to optimize the key parameters affecting the Agrobacterium tumefaciens- mediated transformation (ATMT) for C. lindemuthianum. The transformation efficiency increased with increase in spore concentration and co-cultivation time. However, the optimum conditions that yielded significant number of transformants were 106 ml-1 spore concentration, co-cultivation time of 72 h, incubation at 25ºC and using a cellulose membrane filter for the co-cultivation. The optimized protocol resulted in establishment of large mutant library (2400). A few mutants were melanin deficient and a few were unable to produce conidia. To determine the altered pathogenicity, two new approaches such as detached leaf and twig techniques proved reliable and require fewer resources to screen the large mutant libraries in a short time. Among the 1200 transformants tested for virulence, 90% transformants were pathogenically similar to wild type (race 2047), 96 and 24 were reduced and impaired, respectively. The altered avirulent transformants can prove vital for understanding the missing link between growth and developmental stages of pathogen with virulence. This platform will help to develop strategies to determine the potential pathogenicity genes and to decipher molecular mechanisms of host-pathogen interactions in more detail.
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Affiliation(s)
- Aasiya Nabi
- Plant Virology and Molecular Plant Pathology Laboratory, Division of Plant Pathology, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir, India, 190 025
| | - Aqleema Banoo
- Plant Virology and Molecular Plant Pathology Laboratory, Division of Plant Pathology, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir, India, 190 025
| | - Rovidha S Rasool
- Plant Virology and Molecular Plant Pathology Laboratory, Division of Plant Pathology, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir, India, 190 025
| | - M S Dar
- Plant Virology and Molecular Plant Pathology Laboratory, Division of Plant Pathology, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir, India, 190 025
| | - Syed Shoaib Mubashir
- Plant Virology and Molecular Plant Pathology Laboratory, Division of Plant Pathology, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir, India, 190 025
| | - Khalid Z Masoodi
- Division of Plant Biotechnology, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir, India, 190 025
| | - M D Shah
- Plant Virology and Molecular Plant Pathology Laboratory, Division of Plant Pathology, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir, India, 190 025
| | - Akhtar A Khan
- Division of Entomology, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir, India, 190 025
| | - Imran Khan
- Division of Agricultural Statistics, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir, India, 190 025
| | - Bilal A Padder
- Plant Virology and Molecular Plant Pathology Laboratory, Division of Plant Pathology, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir, India, 190 025
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Montoya MRA, Massa GA, Colabelli MN, Ridao ADC. Efficient Agrobacterium tumefaciens-mediated transformation system of Diaporthe caulivora. J Microbiol Methods 2021; 184:106197. [PMID: 33713724 DOI: 10.1016/j.mimet.2021.106197] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2020] [Revised: 03/03/2021] [Accepted: 03/05/2021] [Indexed: 11/29/2022]
Abstract
This is the first report describing the genetic transformation of Diaporthe caulivora, the soybean stem canker fungus. A simple and 100% efficient protocol of Agrobacterium tumefaciens-mediated transformation used mycelium as starting material and the hygromycin B resistance and green fluorescent protein (GFP) as a selection and reporter agents, respectively. All transgenic isolates were mitotically stable in two independent experiments and polymerase chain reaction with hygromycin B resistance primers confirmed successful T-DNA integration into the fungal genome. Plant-fungus interaction studies, including pathogenicity, latency, and endophytism, as well as further studies of random and targeted mutagenesis will be possible with GFP-expressing isolates of D. caulivora and other species in the Diaporthe / Phomopsis complex.
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Affiliation(s)
- Marina R A Montoya
- Instituto de Innovación para la Producción Agropecuaria y el Desarrollo Sostenible (IPADS Balcarce), INTA - CONICET, Ruta 226 Km 73.5 (7620), Balcarce, Buenos Aires, Argentina..
| | - Gabriela A Massa
- Instituto de Innovación para la Producción Agropecuaria y el Desarrollo Sostenible (IPADS Balcarce), INTA - CONICET, Ruta 226 Km 73.5 (7620), Balcarce, Buenos Aires, Argentina.; Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Ruta 226 Km 73.5 (7620), Balcarce, Buenos Aires, Argentina.; Facultad de Ciencias Agrarias, Universidad Nacional de Mar del Plata (FCA, UNMdP), Ruta 226 Km 73.5 (7620), Balcarce, Buenos Aires, Argentina
| | - Mabel N Colabelli
- Facultad de Ciencias Agrarias, Universidad Nacional de Mar del Plata (FCA, UNMdP), Ruta 226 Km 73.5 (7620), Balcarce, Buenos Aires, Argentina
| | - Azucena Del Carmen Ridao
- Facultad de Ciencias Agrarias, Universidad Nacional de Mar del Plata (FCA, UNMdP), Ruta 226 Km 73.5 (7620), Balcarce, Buenos Aires, Argentina
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Wu B, Chen Z, Xu X, Chen R, Wang S, Xu H, Lin F. Harnessing a Transient Gene Expression System in Nicotiana benthamiana to Explore Plant Agrochemical Transporters. PLANTS (BASEL, SWITZERLAND) 2021; 10:plants10030524. [PMID: 33799776 PMCID: PMC7998108 DOI: 10.3390/plants10030524] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/30/2020] [Revised: 03/01/2021] [Accepted: 03/02/2021] [Indexed: 05/20/2023]
Abstract
Functional characterization of plant agrichemical transporters provided an opportunity to discover molecules that have a high mobility in plants and have the potential to increase the amount of pesticides reaching damage sites. Agrobacterium-mediated transient expression in tobacco is simple and fast, and its protein expression efficiency is high; this system is generally used to mediate heterologous gene expression. In this article, transient expression of tobacco nicotine uptake permease (NtNUP1) and rice polyamine uptake transporter 1 (OsPUT1) in Nicotiana benthamiana was performed to investigate whether this system is useful as a platform for studying the interactions between plant transporters and pesticides. The results showed that NtNUP1 increases nicotine uptake in N. benthamiana foliar discs and protoplasts, indicating that this transient gene expression system is feasible for studying gene function. Moreover, yeast expression of OsPUT1 apparently increases methomyl uptake. Overall, this method of constructing a transient gene expression system is useful for improving the efficiency of analyzing the functions of plant heterologous transporter-encoding genes and revealed that this system can be further used to study the functions of transporters and pesticides, especially their interactions.
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Affiliation(s)
- Bingqi Wu
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources/Key Laboratory of Natural Pesticide and Chemical Biology, Ministry of Education, South China Agricultural University, Guangzhou 510642, China; (B.W.); (Z.C.); (X.X.); (R.C.); (S.W.)
| | - Zhiting Chen
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources/Key Laboratory of Natural Pesticide and Chemical Biology, Ministry of Education, South China Agricultural University, Guangzhou 510642, China; (B.W.); (Z.C.); (X.X.); (R.C.); (S.W.)
- Institute of Quality Standard and Monitoring Technology for Agro-Products of Guangdong Academy of Agricultural Sciences, Guangzhou 510642, China
| | - Xiaohui Xu
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources/Key Laboratory of Natural Pesticide and Chemical Biology, Ministry of Education, South China Agricultural University, Guangzhou 510642, China; (B.W.); (Z.C.); (X.X.); (R.C.); (S.W.)
| | - Ronghua Chen
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources/Key Laboratory of Natural Pesticide and Chemical Biology, Ministry of Education, South China Agricultural University, Guangzhou 510642, China; (B.W.); (Z.C.); (X.X.); (R.C.); (S.W.)
| | - Siwei Wang
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources/Key Laboratory of Natural Pesticide and Chemical Biology, Ministry of Education, South China Agricultural University, Guangzhou 510642, China; (B.W.); (Z.C.); (X.X.); (R.C.); (S.W.)
| | - Hanhong Xu
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources/Key Laboratory of Natural Pesticide and Chemical Biology, Ministry of Education, South China Agricultural University, Guangzhou 510642, China; (B.W.); (Z.C.); (X.X.); (R.C.); (S.W.)
- Correspondence: (H.X.); (F.L.); Tel.: +86-20-8528-5127 (H.X. & F.L.)
| | - Fei Lin
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources/Key Laboratory of Natural Pesticide and Chemical Biology, Ministry of Education, South China Agricultural University, Guangzhou 510642, China; (B.W.); (Z.C.); (X.X.); (R.C.); (S.W.)
- Guangdong Province Key Laboratory of Microbial Signals and Disease Control, South China Agricultural University, Guangzhou 510642, China
- Correspondence: (H.X.); (F.L.); Tel.: +86-20-8528-5127 (H.X. & F.L.)
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Coradetti ST, Pinel D, Geiselman GM, Ito M, Mondo SJ, Reilly MC, Cheng YF, Bauer S, Grigoriev IV, Gladden JM, Simmons BA, Brem RB, Arkin AP, Skerker JM. Functional genomics of lipid metabolism in the oleaginous yeast Rhodosporidium toruloides. eLife 2018. [PMID: 29521624 PMCID: PMC5922974 DOI: 10.7554/elife.32110] [Citation(s) in RCA: 69] [Impact Index Per Article: 11.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023] Open
Abstract
The basidiomycete yeast Rhodosporidium toruloides (also known as Rhodotorula toruloides) accumulates high concentrations of lipids and carotenoids from diverse carbon sources. It has great potential as a model for the cellular biology of lipid droplets and for sustainable chemical production. We developed a method for high-throughput genetics (RB-TDNAseq), using sequence-barcoded Agrobacterium tumefaciens T-DNA insertions. We identified 1,337 putative essential genes with low T-DNA insertion rates. We functionally profiled genes required for fatty acid catabolism and lipid accumulation, validating results with 35 targeted deletion strains. We identified a high-confidence set of 150 genes affecting lipid accumulation, including genes with predicted function in signaling cascades, gene expression, protein modification and vesicular trafficking, autophagy, amino acid synthesis and tRNA modification, and genes of unknown function. These results greatly advance our understanding of lipid metabolism in this oleaginous species and demonstrate a general approach for barcoded mutagenesis that should enable functional genomics in diverse fungi. The fungus Rhodosporidium toruloides can grow on substances extracted from plant matter that is inedible to humans such as corn stalks, wood pulp, and grasses. Under some growth conditions, the fungus can accumulate massive stores of hydrocarbon-rich fats and pigments. A community of scientists and engineers has begun genetically modifying R. toruloides to convert these naturally produced fats and pigments into fuels, chemicals and medicines. These could form sustainable replacements for products made from petroleum or harvested from threatened animal and plant species. Fungi, plants, animals and other eukaryotes store fat in specialized compartments called lipid droplets. The genes that control the metabolism – the production, use and storage – of fat in lipid bodies have been studied in certain eukaryotes, including species of yeast. However, R. toruloides is only distantly related to the most well-studied of these species. This means that we cannot be certain that a gene will play the same role in R. toruloides as in those species. To assemble the most comprehensive list possible of the genes in R. toruloides that affect the production, use, or storage of fat in lipid bodies, Coradetti, Pinel et al. constructed a population of hundreds of thousands of mutant fungal strains, each with its own unique DNA ‘barcode’. The effects that mutations in over 6,000 genes had on growth and fat accumulation in these fungi were measured simultaneously in several experiments. This general approach is not new, but technical limitations had, until now, restricted its use in fungi to a few species. Coradetti, Pinel et al. identified hundreds of genes that affected the ability of R. toruloides to metabolise fat. Many of these genes were related to genes with known roles in fat metabolism in other eukaryotes. Other genes are involved in different cell processes, such as the recycling of waste products in the cell. Their identification adds weight to the view that the links between these cellular processes and fat metabolism are deep and widespread amongst eukaryotes. Finally, some of the genes identified by Coradetti, Pinel et al. are not closely related to any well-studied genes. Further study of these genes could help us to understand why R. toruloides can accumulate much larger amounts of fat than most other fungi. The methods developed by Coradetti, Pinel et al. should be possible to implement in many species of fungi. As a result these techniques may eventually contribute to the development of new treatments for human fungal diseases, the protection of important food crops, and a deeper understanding of the roles various fungi play in the broader ecosystem.
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Affiliation(s)
| | - Dominic Pinel
- Energy Biosciences Institute, Berkeley, United States
| | | | - Masakazu Ito
- Energy Biosciences Institute, Berkeley, United States
| | - Stephen J Mondo
- United States Department of Energy Joint Genome Institute, Walnut Creek, United States
| | - Morgann C Reilly
- Joint BioEnergy Institute, Emeryville, United States.,Chemical and Biological Processes Development Group, Pacific Northwest National Laboratory, Richland, United States
| | - Ya-Fang Cheng
- Energy Biosciences Institute, Berkeley, United States
| | - Stefan Bauer
- Energy Biosciences Institute, Berkeley, United States
| | - Igor V Grigoriev
- United States Department of Energy Joint Genome Institute, Walnut Creek, United States.,Department of Plant and Microbial Biology, University of California, Berkeley, Berkeley, United States.,Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, United States
| | | | - Blake A Simmons
- Joint BioEnergy Institute, Emeryville, United States.,Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, United States
| | - Rachel B Brem
- The Buck Institute for Research on Aging, Novato, United States.,Department of Plant and Microbial Biology, University of California, Berkeley, Berkeley, United States
| | - Adam P Arkin
- Energy Biosciences Institute, Berkeley, United States.,Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, United States.,Department of Bioengineering, University of California, Berkeley, Berkeley, United States
| | - Jeffrey M Skerker
- Energy Biosciences Institute, Berkeley, United States.,Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, United States.,Department of Bioengineering, University of California, Berkeley, Berkeley, United States
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Martínez-Cruz J, Romero D, de Vicente A, Pérez-García A. Transformation of the cucurbit powdery mildew pathogen Podosphaera xanthii by Agrobacterium tumefaciens. THE NEW PHYTOLOGIST 2017; 213:1961-1973. [PMID: 27864969 DOI: 10.1111/nph.14297] [Citation(s) in RCA: 30] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/08/2016] [Accepted: 09/21/2016] [Indexed: 06/06/2023]
Abstract
The obligate biotrophic fungal pathogen Podosphaera xanthii is the main causal agent of powdery mildew in cucurbit crops all over the world. A major limitation of molecular studies of powdery mildew fungi (Erysiphales) is their genetic intractability. In this work, we describe a robust method based on the promiscuous transformation ability of Agrobacterium tumefaciens for reliable transformation of P. xanthii. The A. tumefaciens-mediated transformation (ATMT) system yielded transformants of P. xanthii with diverse transferred DNA (T-DNA) constructs. Analysis of the resultant transformants showed the random integration of T-DNA into the P. xanthii genome. The integrations were maintained in successive generations in the presence of selection pressure. Transformation was found to be transient, because in the absence of selection agent, the introduced genetic markers were lost due to excision of T-DNA from the genome. The ATMT system represents a potent tool for genetic manipulation of P. xanthii and will likely be useful for studying other biotrophic fungi. We hope that this method will contribute to the development of detailed molecular studies of the intimate interaction established between powdery mildew fungi and their host plants.
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Affiliation(s)
- Jesús Martínez-Cruz
- Instituto de Hortofruticultura Subtropical y Mediterránea 'La Mayora' - Universidad de Málaga - Consejo Superior de Investigaciones Científicas (IHSM-UMA-CSIC), Málaga, 29071, Spain
- Departamento de Microbiología, Facultad de Ciencias, Universidad de Málaga. Bulevar Louis Pasteur 31, Málaga, 29071, Spain
| | - Diego Romero
- Instituto de Hortofruticultura Subtropical y Mediterránea 'La Mayora' - Universidad de Málaga - Consejo Superior de Investigaciones Científicas (IHSM-UMA-CSIC), Málaga, 29071, Spain
- Departamento de Microbiología, Facultad de Ciencias, Universidad de Málaga. Bulevar Louis Pasteur 31, Málaga, 29071, Spain
| | - Antonio de Vicente
- Instituto de Hortofruticultura Subtropical y Mediterránea 'La Mayora' - Universidad de Málaga - Consejo Superior de Investigaciones Científicas (IHSM-UMA-CSIC), Málaga, 29071, Spain
- Departamento de Microbiología, Facultad de Ciencias, Universidad de Málaga. Bulevar Louis Pasteur 31, Málaga, 29071, Spain
| | - Alejandro Pérez-García
- Instituto de Hortofruticultura Subtropical y Mediterránea 'La Mayora' - Universidad de Málaga - Consejo Superior de Investigaciones Científicas (IHSM-UMA-CSIC), Málaga, 29071, Spain
- Departamento de Microbiología, Facultad de Ciencias, Universidad de Málaga. Bulevar Louis Pasteur 31, Málaga, 29071, Spain
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Wu L, Conner RL, Wang X, Xu R, Li H. Variation in Growth, Colonization of Maize, and Metabolic Parameters of GFP- and DsRed-Labeled Fusarium verticillioides Strains. PHYTOPATHOLOGY 2016; 106:890-899. [PMID: 27088391 DOI: 10.1094/phyto-09-15-0236-r] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
Autofluorescent proteins are frequently applied as visual markers in the labeling of filamentous fungi. Genes gfp and DsRed were transformed into the genome of Fusarium verticillioides via the Agrobacterium tumefaciens-mediated transformation method. The selected transformants displayed a bright green or red fluorescence in all the organelles of the growing fungal mycelia and spores (except for the vacuoles) both in cultures and in the maize (Zea mays) roots they colonized. The results of gene-specific polymerase chain reaction (PCR) analysis and the thermal asymmetrical interlaced (TAIL)-PCR analysis demonstrated that gfp and DsRed were integrated on different chromosomes of the fungus. Reductions in the colony growth on the plates at pH 4.0 and 5.5 was observed for the green fluorescent protein (GFP)-transformant G3 and the DsRed-transformant R4, but transformants G4 and R1 grew as well as the wild-type strain at pH 4.0. The speed of growth of all the transformants was similar to the wild-type strain at pH ≥ 7. The insertion of gfp and DsRed did not alter the production of extracellular enzymes and fumonisin B by F. verticillioides. The transformants expressing GFP and DsRed proteins were able to colonize maize roots. However, the four transformants examined produced fewer CFU in the root samples than the wild-type strain during a sampling period of 7 to 28 days after inoculation.
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Affiliation(s)
- Lei Wu
- First, third, and fifth authors: The National Key Facility for Crop Gene Resources and Genetic Improvement/Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing 100081; second author: Morden Research and Development Centre, Agriculture and Agri-Food Canada, Morden, Manitoba R6M 1Y5, Canada; and fourth author: Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing
| | - R L Conner
- First, third, and fifth authors: The National Key Facility for Crop Gene Resources and Genetic Improvement/Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing 100081; second author: Morden Research and Development Centre, Agriculture and Agri-Food Canada, Morden, Manitoba R6M 1Y5, Canada; and fourth author: Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing
| | - Xiaoming Wang
- First, third, and fifth authors: The National Key Facility for Crop Gene Resources and Genetic Improvement/Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing 100081; second author: Morden Research and Development Centre, Agriculture and Agri-Food Canada, Morden, Manitoba R6M 1Y5, Canada; and fourth author: Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing
| | - Rongqi Xu
- First, third, and fifth authors: The National Key Facility for Crop Gene Resources and Genetic Improvement/Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing 100081; second author: Morden Research and Development Centre, Agriculture and Agri-Food Canada, Morden, Manitoba R6M 1Y5, Canada; and fourth author: Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing
| | - Hongjie Li
- First, third, and fifth authors: The National Key Facility for Crop Gene Resources and Genetic Improvement/Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing 100081; second author: Morden Research and Development Centre, Agriculture and Agri-Food Canada, Morden, Manitoba R6M 1Y5, Canada; and fourth author: Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing
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Yu M, Yu J, Hu J, Huang L, Wang Y, Yin X, Nie Y, Meng X, Wang W, Liu Y. Identification of pathogenicity-related genes in the rice pathogen Ustilaginoidea virens through random insertional mutagenesis. Fungal Genet Biol 2015; 76:10-9. [DOI: 10.1016/j.fgb.2015.01.004] [Citation(s) in RCA: 35] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2014] [Revised: 12/31/2014] [Accepted: 01/16/2015] [Indexed: 10/24/2022]
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